find_valid_geneID: find_valid_geneID

In VCCRI/C3: An R package for cross-species compendium-based cell-type identification for transcriptomic profile

Description

This helper function returns a data frame with two columns containing all valid gene IDs and their description that have mapping to Ensembl gene IDs for the given species. For supported species that have ensembl id mapping run 'supportedSpecies' (this command is from XGSA package), it will return all the names of the supported species. For each species there exists separate ensembl datasets.

Usage

find_valid_geneID(species = "hsapiens")

Arguments

species

Species name in the form "hsapiens"

Details

This helper function returns a data frame with two columns containing all valid gene IDs and their description that have mapping to Ensembl gene IDs for the given species. For supported species that have ensembl id mapping run 'supportedSpecies' (this command is from XGSA package), it will return all the names of the supported species. For each species there exists separate ensembl dataset.

Value

This helper function returns a data frame with two columns containing all valid gene IDs and their description that have mapping to Ensembl gene IDs for the given species

Examples

human.valid.gene.IDs<-find_valid_geneID(species = "hsapiens")
head(human.valid.gene.IDs)

VCCRI/C3 documentation built on May 14, 2019, 8:41 a.m.